[go: up one dir, main page]
More Web Proxy on the site http://driver.im/ Skip to main content
Log in

Diversity of mitochondrial genome organization

  • Review
  • Published:
Biochemistry (Moscow) Aims and scope Submit manuscript

Abstract

In this review, we discuss types of mitochondrial genome structural organization (architecture), which includes the following characteristic features: size and the shape of DNA molecule, number of encoded genes, presence of cryptogenes, and editing of primary transcripts.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Subscribe and save

Springer+ Basic
£29.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or eBook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Price includes VAT (United Kingdom)

Instant access to the full article PDF.

Similar content being viewed by others

Abbreviations

ED:

edited domain, a fragment of the primary transcript that needs to be edited

mRNA:

messenger RNA

mt genome:

mitochondrial genome

pan-editing:

editing of the whole molecule of primary transcript

References

  1. Steinert, G., Firket, H., and Steinert, M. (1958) Exp. Cell Res., 15, 632–635.

    PubMed  CAS  Google Scholar 

  2. Ris, H., and Plaut, W. (1962) J. Cell Biol., 13, 383–391.

    PubMed  CAS  Google Scholar 

  3. Nass, S., and Nass, M. M. K. (1963) J. Cell Biol., 19, 593–611.

    PubMed  CAS  Google Scholar 

  4. Boyce, T. M., Zwick, M. E., and Aquadro, C. F. (1989) Genetics, 123, 825–836.

    PubMed  CAS  Google Scholar 

  5. Okimoto, R., Macfarlane, J. L., Clary, D. O., and Wolstenholme, D. R. (1992) Genetics, 130, 471–498.

    PubMed  CAS  Google Scholar 

  6. Azevedo, J., and Hyman, B. (1993) Genetics, 133, 933–942.

    PubMed  CAS  Google Scholar 

  7. Fuller, K. M., and Zouros, E. (1993) Curr. Genet., 23, 365–369.

    PubMed  CAS  Google Scholar 

  8. Boore, J. L. (1999) Nucleic Acids Res., 27, 1767–1780.

    PubMed  CAS  Google Scholar 

  9. Clayton, D. A. (2000) Exp. Cell Res., 255, 4–9.

    PubMed  CAS  Google Scholar 

  10. Delarbre, C., Rasmussen, A.-S., Amason, U., and Gachelin, G. (2001) J. Mol. Evol., 53, 634–641.

    PubMed  CAS  Google Scholar 

  11. Hu, M., and Gasser, R. B. (2006) Trends Parasitol., 22, 78–84.

    PubMed  CAS  Google Scholar 

  12. Ravin, N. V., Galachyants, Y. P., Mardanov, A. V., Beletsky, A. V., Petrova, D. P., Sherbakova, T. A., Zakharova, Y. R., Likhoshway, Y. V., Skryabin, K. G., and Grachev, M. A. (2010) Curr. Genet., 56, 215–223.

    PubMed  CAS  Google Scholar 

  13. Odintsova, M. S., and Yurina, N. P. (2002) Genetika, 38, 773–788.

    PubMed  CAS  Google Scholar 

  14. Lang, B. F., O’Kelly, C., Nerad, T., Gray, M. W., and Burger, G. (2002) Curr. Biol., 12, 1773–1778.

    PubMed  CAS  Google Scholar 

  15. Watanabe, K. I., Bessho, Y., Kawasaki, M., and Hori, H. (1999) J. Mol. Biol., 286, 645–650.

    PubMed  CAS  Google Scholar 

  16. Roy, J., Faktorova, D., Lukes, J., and Burger, G. (2007) Protist, 158, 385–396.

    PubMed  CAS  Google Scholar 

  17. Cameron, S. L., Yoshikawa, K., Mizukoshi, A., Whiting, M. F., and Lohnson, K. P. (2011) BMC Genomics, 12, 394.

    PubMed  CAS  Google Scholar 

  18. Moreira, D., Lopez-Garcia, P., and Vickerman, K. (2004) Int. J. Syst. Evol. Microbiol., 54, 1861–1875.

    PubMed  CAS  Google Scholar 

  19. Theologidis, I., Fodelianakis, S., Gaspar, M. B., and Zouros, E. (2008) Evolution, 62, 959–970.

    PubMed  CAS  Google Scholar 

  20. Mizi, A., Zouros, E., Moschonas, N., and Rodakis, G. C. (2005) Mol. Biol. Evol., 22, 952–967.

    PubMed  CAS  Google Scholar 

  21. Suyama, Y., and Miura, K. (1968) Proc. Natl. Acad. Sci. USA, 60, 235–242.

    PubMed  CAS  Google Scholar 

  22. Goddard, J. M., and Cummings, D. J. (1977) J. Mol. Biol., 109, 327–344.

    PubMed  CAS  Google Scholar 

  23. Wilson, R. J. M., and Williamson, D. H. (1997) Microbiol. Mol. Biol. Rev., 61, 1–16.

    PubMed  CAS  Google Scholar 

  24. Bridge, D., Cunningham, C. W., Schierwater, B., DeSalle, R., and Buss, L. W. (1992) Proc. Natl. Acad. Sci. USA, 89, 8750–8753.

    PubMed  CAS  Google Scholar 

  25. Kayal, E., Bentlage, B., Collins, A. G., Kayal, M., Pirro, S., and Lavrov, D. V. (2012) Genome Biol. Evol., 4, 1–12.

    PubMed  CAS  Google Scholar 

  26. Smith, D. R., Kayal, E., Yanaqihara, A. A., Collins, A. G., Pirro, S., and Keeling, P. J. (2012) Genome Biol. Evol., 4, 52–58.

    PubMed  CAS  Google Scholar 

  27. Morin, G. B., and Cech, T. R. (1988) Cell, 52, 367–374.

    PubMed  CAS  Google Scholar 

  28. Nosek, J., and Tomaska, L. (2003) Curr. Genet., 44, 73–84.

    PubMed  CAS  Google Scholar 

  29. Swart, E. C., Nowacki, M., Shum, J., Stiles, H., Higgins, B. P., Doak, T. G., Schotanus, K., Magrini, V. J., Minx, P., Mardis, E. R., and Landweber, L. F. (2012) Genome. Biol. Evol., 4, 136–154.

    PubMed  CAS  Google Scholar 

  30. Burger, G., Forget, L., Zhu Yun, Gray, M. W., and Lang, B. F. (2003) Proc. Natl. Acad. Sci. USA, 100, 892–897.

    PubMed  CAS  Google Scholar 

  31. Yasuhira, S., and Simpson, L. (1997) J. Mol. Evol., 44, 341–347.

    PubMed  CAS  Google Scholar 

  32. Spencer, D. F., and Gray, M. W. (2010) Mol. Gen. Genom., 285, 19–31.

    Google Scholar 

  33. Nash, E. A., Nisbet, R. E. R., Barbrook, A. C., and Howe, C. J. (2008) Trends Genet., 24, 328–335.

    PubMed  CAS  Google Scholar 

  34. Jackson, C. J., Norman, J. T., Schnare, M. N., Gray, M. W., Keeling, P. J., and Waller, R. F. (2007) BMC Biology, 5:41 doi: 10.1186/1741-7007-5-41.

  35. Bendich, A. J. (2010) Mol. Cell, 39, 831–832.

    PubMed  CAS  Google Scholar 

  36. Arnason, E., and Rand, D. M. (1992) Genetics, 132, 211–220.

    PubMed  CAS  Google Scholar 

  37. Sato, A., Endo, H., Umetsu, K., Sone, H., Yanagisawa, Y., Saigusa, A., Aita, S., and Kagawa, Y. (2003) Biosci. Rep., 23, 313–337.

    PubMed  CAS  Google Scholar 

  38. Cavalier-Smith, T. (2003) Eur. J. Protistol., 39, 338–348.

    Google Scholar 

  39. Baldauf, S. L. (2003) Science, 300, 1703–1706.

    PubMed  CAS  Google Scholar 

  40. Keeling, P. J., Burger, G., Durnford, D. G., Lang, B. F., et al. (2005) Trends Ecol. Evol., 20, 670–676.

    PubMed  Google Scholar 

  41. Feagin, J. E., Abraham, J. M., and Stuart, K. (1988) Cell, 53, 413–422.

    PubMed  CAS  Google Scholar 

  42. Wang, Y., and Bogenhagen, D. F. (2006) J. Biol. Chem., 281, 25791–25802.

    PubMed  CAS  Google Scholar 

  43. Bogenhagen, D. F., Wang, Y., Shen, E. L., and Kobayashi, R. (2003) Mol. Cell Proteom., 2, 1205–1216.

    CAS  Google Scholar 

  44. Holt, I. J., He, J., Mao, C.-C., Boyd-Kirkup, J. D., et al. (2007) Mitochondrion, 7, 311–321.

    PubMed  CAS  Google Scholar 

  45. Bogenhagen, D. F., Rousseau, D., and Burke, S. (2008) J. Biol. Chem., 283, 3665–3675.

    PubMed  CAS  Google Scholar 

  46. Miyakawa, I., Okamuro, A., Kinski, S., Visacka, K., Tomashka, L., and Nosek, J. (2009) Microbiology, 155, 1558–1568.

    PubMed  CAS  Google Scholar 

  47. Gray, M. W. (1999) Curr. Opin. Genet. Develop., 9, 678–687.

    CAS  Google Scholar 

  48. Lang, B. F., Burger, G., O’Kelly, C. J., Cedergren, R., Golding, G. B., Lemieux, C., Sankoff, D., Turmel, M., and Gray, M. W. (1997) Nature, 387, 493–497.

    PubMed  CAS  Google Scholar 

  49. Sugiyama, Y., Watase, Y., Nagase, M., Makita, N., Yagura, S., Hirai, A., and Sugiura, M. (2005) Mol. Genet. Genom., 272, 603–615.

    CAS  Google Scholar 

  50. Warner, J. R., and McIntosh, K. B. (2009) Mol. Cell, 34, 3–11.

    PubMed  CAS  Google Scholar 

  51. Gott, J. M., and Emeson, R. B. (2000) Annu Rev. Genet., 34, 499–531.

    PubMed  CAS  Google Scholar 

  52. Ohman, M. (2007) Biochimie, 89, 1171–1176.

    PubMed  CAS  Google Scholar 

  53. Benne, R., Van den Burg, J., Brakenhoff, J., Sloof, P., Van Boom, J., and Tromp, M. (1986) Cell, 46, 819–826.

    PubMed  CAS  Google Scholar 

  54. Vidal, S., Curran, J., and Kolakofsky, D. (1990) EMBO J., 9, 2017–2022.

    PubMed  CAS  Google Scholar 

  55. Chateigner-Boutin, A.-L., and Small, I. (2011) WIREs RNA, 2, 493–506.

    PubMed  CAS  Google Scholar 

  56. Covello, P. S., and Gray, M. W. (1989) Nature, 341, 662–666.

    PubMed  CAS  Google Scholar 

  57. Gualberto, J. M., Lamattina, L., Bonnard, G., Weil, J.-H., and Grienenberger, J. M. (1989) Nature, 341, 660–662.

    PubMed  CAS  Google Scholar 

  58. Hiesel, R., Wissinger, B., Schuster, W., and Brennicke, A. (1989) Science, 246, 1632–1634.

    PubMed  CAS  Google Scholar 

  59. Giege, P., and Brennicke, A. (1999) Proc. Natl. Acad. Sci. USA, 96, 15324–15329.

    PubMed  CAS  Google Scholar 

  60. Handa, H. (2003) Nucleic Acids Res., 31, 5907–5916.

    PubMed  CAS  Google Scholar 

  61. Notsu, Y., Masood, S., Nishikawa, T., Kubo, N., Akiduki, G., Nakazono, M., Hirai, A., and Kadowaki, K. (2002) Mol. Genet. Genom., 268, 434–445.

    CAS  Google Scholar 

  62. Faivre-Nitschke, S. E., Grienenberger, J. M., and Gualberto, J. M. (1999) Eur. J. Biochem., 263, 896–903.

    PubMed  CAS  Google Scholar 

  63. Takenaka, M., and Brennicke, A. (2003) J. Biol. Chem., 278, 47526–47533.

    PubMed  CAS  Google Scholar 

  64. Lippok, B., Wissinger, B., and Brennicke, A. (1994) Mol. Gen. Genet., 243, 39–46.

    PubMed  CAS  Google Scholar 

  65. Kubo, N., and Kadowaki, K. (1997) FEBS Lett., 413, 40–44.

    PubMed  CAS  Google Scholar 

  66. Oda, K., Yamato, K., Ohta, E., Nakamura, Y., Takemura, M., Nozato, N., Akashi, K., Kanegae, T., Ogura, Y., Kohchi, T., and Ohyama, K. (1992) J. Mol. Biol., 223, 1–7.

    PubMed  CAS  Google Scholar 

  67. Turmel, M., Otis, C., and Lemieux, C. (2003) Plant Cell, 15, 1888–1903.

    PubMed  CAS  Google Scholar 

  68. Gott, J. M., Visomirski, L. M., and Hunter, J. L. (1993) J. Biol. Chem., 268, 25483–25486.

    PubMed  CAS  Google Scholar 

  69. Gott, J. M., and Rhee, A. C. (2008) in RNA Editing (Gott, J. M., and Rhee, A. C., eds.) Springer, Berlin, pp. 85–104.

    Google Scholar 

  70. Visomirski-Robic, L. M., and Gott, J. M. (1995) RNA, 1, 681–691.

    PubMed  CAS  Google Scholar 

  71. Wang, S. S., Mahendran, R., and Miller, D. L. (1999) J. Biol. Chem., 274, 2725–2731.

    PubMed  CAS  Google Scholar 

  72. Horton, T., and Landweber, L. (2000) RNA, 6, 1339–1346.

    PubMed  CAS  Google Scholar 

  73. Visomirski-Robic, L. M., and Gott, J. M. (1997) RNA, 3, 821–837.

    PubMed  CAS  Google Scholar 

  74. Visomirski-Robic, L. M., and Gott, J. M. (1997) Proc. Natl. Acad. Sci. USA, 94, 4324–4329.

    PubMed  CAS  Google Scholar 

  75. Traphagen, S. J., Dimarco, M. J., and Silliker, M. E. (2010) RNA, 16, 828–838.

    PubMed  CAS  Google Scholar 

  76. Beargie, C., Liu, T., Corriveau, M., Lee, H. Y., Gott, J., and Bundschuh, R. (2008) Bioinformatics, 24, 2571–2578.

    PubMed  CAS  Google Scholar 

  77. Gott, J. M., Parimi, N., and Bundschuh, R. (2005) Nucleic Acids Res., 33, 5063–5072.

    PubMed  CAS  Google Scholar 

  78. Hendrickson, P. G., and Silliker, M. E. (2010) Curr. Genet., 56, 203–213.

    PubMed  CAS  Google Scholar 

  79. Gott, J. M., Somerlot, B. H., and Gray, M. W. (2010) RNA, 16, 482–488.

    PubMed  CAS  Google Scholar 

  80. Alfonzo, J. D., Thiemann, O. H., and Simpson, L. (1998) J. Biol. Chem., 273, 30003–30011.

    PubMed  CAS  Google Scholar 

  81. Pring, D., Brennicke, A., and Schuster, W. (1993) Plant Mol. Biol., 21, 1163–1170.

    PubMed  CAS  Google Scholar 

  82. Barth, C., Greferath, U., Kotsifas, M., and Fisher, P. R. (1999) Curr. Genet., 36, 55–61.

    PubMed  CAS  Google Scholar 

  83. Lin, S., Zhang, H., Spencer, D. F., Norman, J. E., and Gray, M. W. (2002) J. Mol. Biol., 320, 727–739.

    PubMed  CAS  Google Scholar 

  84. Vanfleteren, J. R., and Vierstraete, A. R. (1999) RNA, 5, 622–624.

    PubMed  CAS  Google Scholar 

  85. Lukes, J., Hashimi, H., and Zikova, A. (2005) Curr. Genet., 48, 277–299.

    PubMed  CAS  Google Scholar 

  86. Simpson, L., Sbicego, S., and Aphasizhev, R. (2003) RNA, 9, 265–276.

    PubMed  CAS  Google Scholar 

  87. Blum, B., Bakalara, N., and Simpson, L. (1990) Cell, 60, 189–198.

    PubMed  CAS  Google Scholar 

  88. Blum, B., and Simpson, L. (1990) Cell, 62, 391–397.

    PubMed  CAS  Google Scholar 

  89. Bhat, G. J., Koslowsky, D. J., Feagin, J. E., Smiley, B. L., and Stuart, K. (1990) Cell, 61, 885–894.

    PubMed  CAS  Google Scholar 

  90. Koslowsky, D. J., Bhat, G. J., Perrolaz, A. L., Feagin, J. E., and Stuart, K. (1990) Cell, 62, 901–911.

    PubMed  CAS  Google Scholar 

  91. Sturm, N. R., and Simpson, L. (1990) Cell, 61, 879–884.

    PubMed  CAS  Google Scholar 

  92. Grams, J., McManus, M. T., and Hajduk, S. L. (2000) EMBO J., 19, 5525–5532.

    PubMed  CAS  Google Scholar 

  93. Clement, S. L., Mingler, M. K., and Koslowsky, D. J. (2004) Eukaryote Cell, 3, 862–869.

    CAS  Google Scholar 

  94. Maslov, D. A., and Simpson, L. (1992) Cell, 70, 459–467.

    PubMed  CAS  Google Scholar 

  95. Ochsenreiter, T., and Hajduk, S. L. (2006) EMBO Rep., 7, 1128–1133.

    PubMed  CAS  Google Scholar 

  96. Igo, R. P., Jr., Lawson, S. D., and Stuart, K. (2002) Mol. Cell Biol., 22, 1567–1576.

    PubMed  CAS  Google Scholar 

  97. Aphasizhev, R., Aphasizheva, I., Nelson, R. E., and Simpson, L. (2003) RNA, 9, 62–76.

    PubMed  CAS  Google Scholar 

  98. Aphasizhev, R., Aphasizheva, I., and Simpson, L. (2003) Proc. Natl. Acad. Sci. USA, 100, 10617–10622.

    PubMed  CAS  Google Scholar 

  99. Reifur, L., and Koslowsky, D. J. (2008) RNA, 14, 2195–2211.

    PubMed  CAS  Google Scholar 

  100. Seiwert, S. D., Heidmann, S., and Stuart, K. (1996) Cell, 84, 831–841.

    PubMed  CAS  Google Scholar 

  101. Kable, M. L., Seiwert, S. D., Heidmann, S., and Stuart, K. (1996) Science, 273, 1189–1195.

    PubMed  CAS  Google Scholar 

  102. Seiwert, S. D., and Stuart, K. (1994) Science, 266, 114–117.

    PubMed  CAS  Google Scholar 

  103. Stuart, K. D., Feagin, J. E., and Abraham, J. M. (1989) Gene, 15, 155–160.

    Google Scholar 

  104. Aphasizhev, R., Aphasizheva, I., Nelson, R. E., Gao, G. H., Simpson, A. M., Kang, X. D., Falick, A. M., Sbicego, S., and Simpson, L. (2003) EMBO J., 22, 913–924.

    PubMed  CAS  Google Scholar 

  105. Falick, A. M., Sbicego, S., and Simpson, L. (2003) EMBO J., 22, 913–924.

    PubMed  Google Scholar 

  106. Peris, M., Frech, G. C., Simpson, A. M., Bringaud, F., Byrne, E., Bakker, A., and Simpson, L. (1994) EMBO J., 13, 1664–1672.

    PubMed  CAS  Google Scholar 

  107. Corell, R. A., Read, L. K., Riley, G. R., Nellissery, J. K., Allen, T. E., Kable, M. L., Wachal, M. D., Seiwert, S. D., Myler, P. J., and Stuart, K. D. (1996) Mol Cell Biol., 16, 1410–1418.

    PubMed  CAS  Google Scholar 

  108. Panigrahi, A. K., Ernst, N. L., Domingo, G. J., Fleck, M., Salavati, R., and Stuart, K. D. (2006) RNA, 12, 1038–1049.

    PubMed  CAS  Google Scholar 

  109. Simpson, L., Aphasizhev, R., Gao, G., and Kang, X. (2004) RNA, 10, 159–170.

    PubMed  CAS  Google Scholar 

  110. Schnaufer, A., Wu, M., Park, Y. J., Nakai, T., Deng, J., Proff, R., Hol, W. G., and Stuart, K. D. (2010) J. Biol. Chem., 285, 5282–5295.

    PubMed  CAS  Google Scholar 

  111. Panigrahi, A. K., Schnaufer, A., Carmean, N., Igo, R. P., Gygi, S. P., Ernst, N. L., Palazzo, S. S., Weston, D. S., Abersold, R., Salavati, R., and Stuart, K. D. (2001) Mol. Cell Biol., 21, 6833–6840.

    PubMed  CAS  Google Scholar 

  112. Weston, D. S., Abersold, R., Salavati, R., and Stuart, K. D. (2001) Mol. Cell Biol., 21, 6833–6840.

    PubMed  Google Scholar 

  113. Blom, D., de Haan, A., van den Berg, M., Sloof, P., Jirku, M., Lukes, J., and Benne, R. (1998) Nucleic Acids Res., 26, 1205–1213.

    PubMed  CAS  Google Scholar 

  114. Lukes, J., Arts, G. J., van den Burg, J., de Haan, A., Opperdoes, F., Sloof, P., and Benne, R. (1994) EMBO J., 13, 5086–5098.

    PubMed  CAS  Google Scholar 

  115. Ochs, D. E., Ots, K., Teixeira, S. M. R., Moser, D. R., and Kirchhoff, L. V. (1996) Mol. Biochem. Parasitol., 76, 267–278.

    PubMed  CAS  Google Scholar 

  116. Kolesnikov, A. A., Schonian, G., and Presber, V. (2000) Mol. Biol. (Moscow), 34, 183–185.

    CAS  Google Scholar 

  117. Simpson, L., and Maslov, D. A. (1999) Ann. NY Acad. Sci., 870, 190–205.

    PubMed  CAS  Google Scholar 

  118. Kolesnikov, A. A., Merzlyak, E. M., Bessolitsina, E. A., Fediakov, A. V., and Schonian, G. (2003) Mol. Biol. (Moscow), 37, 539–543.

    CAS  Google Scholar 

  119. Landweber, L. F., and Gilbert, W. (1994) Proc. Natl. Acad. Sci. USA, 91, 918–921.

    PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to A. A. Kolesnikov.

Additional information

Original Russian Text © A. A. Kolesnikov, E. S. Gerasimov, 2012, published in Uspekhi Biologicheskoi Khimii, 2012, Vol. 52, pp. 37–62.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Kolesnikov, A.A., Gerasimov, E.S. Diversity of mitochondrial genome organization. Biochemistry Moscow 77, 1424–1435 (2012). https://doi.org/10.1134/S0006297912130020

Download citation

  • Received:

  • Revised:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0006297912130020

Key words